[ { "key": "F8CHMJXE", "version": 53, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/F8CHMJXE", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/F8CHMJXE", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Sutcliffe and Lancaster", "parsedDate": "2017-03-31", "numChildren": 1 }, "data": { "key": "F8CHMJXE", "version": 53, "itemType": "journalArticle", "title": "A Simple Method of Generating 3D Brain Organoids Using Standard Laboratory Equipment", "creators": [ { "creatorType": "author", "firstName": "Magdalena", "lastName": "Sutcliffe" }, { "creatorType": "author", "firstName": "Madeline A.", "lastName": "Lancaster" } ], "abstractNote": "3D brain organoids are a powerful tool with prospective application for the study of neural development and disease. Here we describe the growth factor-free method of generating cerebral organoids from feeder-dependent or feeder-free human pluripotent stem cells using standard laboratory equipment. The protocol outlined below allows generation of 3D tissues, which replicate human early in vivo brain development up to the end of the first trimester, both in terms of morphology and gene expression pattern.", "publicationTitle": "Methods in Molecular Biology (Clifton, N.J.)", "publisher": "", "place": "", "date": "Mar 31, 2017", "volume": "", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Methods Mol. Biol.", "DOI": "10.1007/7651_2017_2", "citationKey": "", "url": "", "accessDate": "", "PMID": "28361479", "PMCID": "", "ISSN": "1940-6029", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "PubMed", "callNumber": "", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Brain", "type": 1 }, { "tag": "In vitro", "type": 1 }, { "tag": "Neural differentiation", "type": 1 }, { "tag": "Neurobiology", "type": 1 }, { "tag": "Neurodevelopment", "type": 1 }, { "tag": "Organoids", "type": 1 }, { "tag": "Stem cells", "type": 1 }, { "tag": "three-dimensional", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "IFHS2G99", "version": 52, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/IFHS2G99", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/IFHS2G99", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Lancaster et al.", "parsedDate": "2017-07", "numChildren": 1 }, "data": { "key": "IFHS2G99", "version": 52, "itemType": "journalArticle", "title": "Guided self-organization and cortical plate formation in human brain organoids", "creators": [ { "creatorType": "author", "firstName": "Madeline A.", "lastName": "Lancaster" }, { "creatorType": "author", "firstName": "Nina S.", "lastName": "Corsini" }, { "creatorType": "author", "firstName": "Simone", "lastName": "Wolfinger" }, { "creatorType": "author", "firstName": "E. Hilary", "lastName": "Gustafson" }, { "creatorType": "author", "firstName": "Alex W.", "lastName": "Phillips" }, { "creatorType": "author", "firstName": "Thomas R.", "lastName": "Burkard" }, { "creatorType": "author", "firstName": "Tomoki", "lastName": "Otani" }, { "creatorType": "author", "firstName": "Frederick J.", "lastName": "Livesey" }, { "creatorType": "author", "firstName": "Juergen A.", "lastName": "Knoblich" } ], "abstractNote": "Three-dimensional cell culture models have either relied on the self-organizing properties of mammalian cells or used bioengineered constructs to arrange cells in an organ-like configuration. While self-organizing organoids excel at recapitulating early developmental events, bioengineered constructs reproducibly generate desired tissue architectures. Here, we combine these two approaches to reproducibly generate human forebrain tissue while maintaining its self-organizing capacity. We use poly(lactide-co-glycolide) copolymer (PLGA) fiber microfilaments as a floating scaffold to generate elongated embryoid bodies. Microfilament-engineered cerebral organoids (enCORs) display enhanced neuroectoderm formation and improved cortical development. Furthermore, reconstitution of the basement membrane leads to characteristic cortical tissue architecture, including formation of a polarized cortical plate and radial units. Thus, enCORs model the distinctive radial organization of the cerebral cortex and allow for the study of neuronal migration. Our data demonstrate that combining 3D cell culture with bioengineering can increase reproducibility and improve tissue architecture.", "publicationTitle": "Nature Biotechnology", "publisher": "", "place": "", "date": "Jul 2017", "volume": "35", "issue": "7", "section": "", "partNumber": "", "partTitle": "", "pages": "659-666", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Nat. Biotechnol.", "DOI": "10.1038/nbt.3906", "citationKey": "", "url": "", "accessDate": "", "PMID": "28562594", "PMCID": "", "ISSN": "1546-1696", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "68.164 (Q1)", "callNumber": "1", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "UHI3IDZM", "version": 52, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/UHI3IDZM", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/UHI3IDZM", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Brady et al.", "parsedDate": "2014-02", "numChildren": 1 }, "data": { "key": "UHI3IDZM", "version": 52, "itemType": "journalArticle", "title": "The design and development of a high-throughput magneto-mechanostimulation device for cartilage tissue engineering", "creators": [ { "creatorType": "author", "firstName": "Mariea A.", "lastName": "Brady" }, { "creatorType": "author", "firstName": "Reva", "lastName": "Vaze" }, { "creatorType": "author", "firstName": "Harsh D.", "lastName": "Amin" }, { "creatorType": "author", "firstName": "Darryl R.", "lastName": "Overby" }, { "creatorType": "author", "firstName": "C. Ross", "lastName": "Ethier" } ], "abstractNote": "To recapitulate the in vivo environment and create neo-organoids that replace lost or damaged tissue requires the engineering of devices, which provide appropriate biophysical cues. To date, bioreactors for cartilage tissue engineering have focused primarily on biomechanical stimulation. There is a significant need for improved devices for articular cartilage tissue engineering capable of simultaneously applying multiple biophysical (electrokinetic and mechanical) stimuli. We have developed a novel high-throughput magneto-mechanostimulation bioreactor, capable of applying static and time-varying magnetic fields, as well as multiple and independently adjustable mechanical loading regimens. The device consists of an array of 18 individual stations, each of which uses contactless magnetic actuation and has an integrated Hall Effect sensing system, enabling the real-time measurements of applied field, force, and construct thickness, and hence, the indirect measurement of construct mechanical properties. Validation tests showed precise measurements of thickness, within 14 μm of gold standard calliper measurements; further, applied force was measured to be within 0.04 N of desired force over a half hour dynamic loading, which was repeatable over a 3-week test period. Finally, construct material properties measured using the bioreactor were not significantly different (p=0.97) from those measured using a standard materials testing machine. We present a new method for articular cartilage-specific bioreactor design, integrating combinatorial magneto-mechanostimulation, which is very attractive from functional and cost viewpoints.", "publicationTitle": "Tissue Engineering. Part C, Methods", "publisher": "", "place": "", "date": "Feb 2014", "volume": "20", "issue": "2", "section": "", "partNumber": "", "partTitle": "", "pages": "149-159", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Tissue Eng Part C Methods", "DOI": "10.1089/ten.TEC.2013.0225", "citationKey": "", "url": "", "accessDate": "", "PMID": "23721097", "PMCID": "PMC3910453", "ISSN": "1937-3392", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "PubMed", "callNumber": "", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Animals", "type": 1 }, { "tag": "Biocompatible Materials", "type": 1 }, { "tag": "Biomechanical Phenomena", "type": 1 }, { "tag": "Bioreactors", "type": 1 }, { "tag": "Calibration", "type": 1 }, { "tag": "Cartilage, Articular", "type": 1 }, { "tag": "Cattle", "type": 1 }, { "tag": "Equipment Design", "type": 1 }, { "tag": "Magnetics", "type": 1 }, { "tag": "Materials Testing", "type": 1 }, { "tag": "Reproducibility of Results", "type": 1 }, { "tag": "Stress, Mechanical", "type": 1 }, { "tag": "User-Computer Interface", "type": 1 }, { "tag": "tissue engineering", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "A87HMS4Z", "version": 52, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/A87HMS4Z", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/A87HMS4Z", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Raja et al.", "parsedDate": "2016", "numChildren": 1 }, "data": { "key": "A87HMS4Z", "version": 52, "itemType": "journalArticle", "title": "Self-Organizing 3D Human Neural Tissue Derived from Induced Pluripotent Stem Cells Recapitulate Alzheimer's Disease Phenotypes", "creators": [ { "creatorType": "author", "firstName": "Waseem K.", "lastName": "Raja" }, { "creatorType": "author", "firstName": "Alison E.", "lastName": "Mungenast" }, { "creatorType": "author", "firstName": "Yuan-Ta", "lastName": "Lin" }, { "creatorType": "author", "firstName": "Tak", "lastName": "Ko" }, { "creatorType": "author", "firstName": "Fatema", "lastName": "Abdurrob" }, { "creatorType": "author", "firstName": "Jinsoo", "lastName": "Seo" }, { "creatorType": "author", "firstName": "Li-Huei", "lastName": "Tsai" } ], "abstractNote": "The dismal success rate of clinical trials for Alzheimer's disease (AD) motivates us to develop model systems of AD pathology that have higher predictive validity. The advent of induced pluripotent stem cells (iPSCs) allows us to model pathology and study disease mechanisms directly in human neural cells from healthy individual as well as AD patients. However, two-dimensional culture systems do not recapitulate the complexity of neural tissue, and phenotypes such as extracellular protein aggregation are difficult to observe. We report brain organoids that use pluripotent stem cells derived from AD patients and recapitulate AD-like pathologies such as amyloid aggregation, hyperphosphorylated tau protein, and endosome abnormalities. These pathologies are observed in an age-dependent manner in organoids derived from multiple familial AD (fAD) patients harboring amyloid precursor protein (APP) duplication or presenilin1 (PSEN1) mutation, compared to controls. The incidence of AD pathology was consistent amongst several fAD lines, which carried different mutations. Although these are complex assemblies of neural tissue, they are also highly amenable to experimental manipulation. We find that treatment of patient-derived organoids with β- and γ-secretase inhibitors significantly reduces amyloid and tau pathology. Moreover, these results show the potential of this model system to greatly increase the translatability of pre-clinical drug discovery in AD.", "publicationTitle": "PloS One", "publisher": "", "place": "", "date": "2016", "volume": "11", "issue": "9", "section": "", "partNumber": "", "partTitle": "", "pages": "e0161969", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "PLoS ONE", "DOI": "10.1371/journal.pone.0161969", "citationKey": "", "url": "", "accessDate": "", "PMID": "27622770", "PMCID": "PMC5021368", "ISSN": "1932-6203", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "3.752 (Q2)", "callNumber": "3", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "7SSPXNHT", "version": 52, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/7SSPXNHT", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/7SSPXNHT", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Calderon-Gierszal and Prins", "parsedDate": "2015", "numChildren": 1 }, "data": { "key": "7SSPXNHT", "version": 52, "itemType": "journalArticle", "title": "Directed Differentiation of Human Embryonic Stem Cells into Prostate Organoids In Vitro and its Perturbation by Low-Dose Bisphenol A Exposure", "creators": [ { "creatorType": "author", "firstName": "Esther L.", "lastName": "Calderon-Gierszal" }, { "creatorType": "author", "firstName": "Gail S.", "lastName": "Prins" } ], "abstractNote": "Studies using rodent and adult human prostate stem-progenitor cell models suggest that developmental exposure to the endocrine disruptor Bisphenol-A (BPA) can predispose to prostate carcinogenesis with aging. Unknown at present is whether the embryonic human prostate is equally susceptible to BPA during its natural developmental window. To address this unmet need, we herein report the construction of a pioneer in vitro human prostate developmental model to study the effects of BPA. The directed differentiation of human embryonic stem cells (hESC) into prostatic organoids in a spatial system was accomplished with precise temporal control of growth factors and steroids. Activin-induced definitive endoderm was driven to prostate specification by combined exposure to WNT10B and FGF10. Matrigel culture for 20-30 days in medium containing R-Spondin-1, Noggin, EGF, retinoic acid and testosterone was sufficient for mature prostate organoid development. Immunofluorescence and gene expression analysis confirmed that organoids exhibited cytodifferentiation and functional properties of the human prostate. Exposure to 1 nM or 10 nM BPA throughout differentiation culture disturbed early morphogenesis in a dose-dependent manner with 1 nM BPA increasing and 10 nM BPA reducing the number of branched structures formed. While differentiation of branched structures to mature organoids seemed largely unaffected by BPA exposure, the stem-like cell population increased, appearing as focal stem cell nests that have not properly entered lineage commitment rather than the rare isolated stem cells found in normally differentiated structures. These findings provide the first direct evidence that low-dose BPA exposure targets hESC and perturbs morphogenesis as the embryonic cells differentiate towards human prostate organoids, suggesting that the developing human prostate may be susceptible to disruption by in utero BPA exposures.", "publicationTitle": "PloS One", "publisher": "", "place": "", "date": "2015", "volume": "10", "issue": "7", "section": "", "partNumber": "", "partTitle": "", "pages": "e0133238", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "PLoS ONE", "DOI": "10.1371/journal.pone.0133238", "citationKey": "", "url": "", "accessDate": "", "PMID": "26222054", "PMCID": "PMC4519179", "ISSN": "1932-6203", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "3.752 (Q2)", "callNumber": "3", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Adult", "type": 1 }, { "tag": "Benzhydryl Compounds", "type": 1 }, { "tag": "Cell Differentiation", "type": 1 }, { "tag": "Cell Proliferation", "type": 1 }, { "tag": "Cells, Cultured", "type": 1 }, { "tag": "Dose-Response Relationship, Drug", "type": 1 }, { "tag": "Endoderm", "type": 1 }, { "tag": "Fluorescent Antibody Technique", "type": 1 }, { "tag": "Free Radical Scavengers", "type": 1 }, { "tag": "Human Embryonic Stem Cells", "type": 1 }, { "tag": "Humans", "type": 1 }, { "tag": "In Vitro Techniques", "type": 1 }, { "tag": "Male", "type": 1 }, { "tag": "Mesoderm", "type": 1 }, { "tag": "Organoids", "type": 1 }, { "tag": "Phenols", "type": 1 }, { "tag": "Prostate", "type": 1 }, { "tag": "RNA, Messenger", "type": 1 }, { "tag": "Real-Time Polymerase Chain Reaction", "type": 1 }, { "tag": "Reverse Transcriptase Polymerase Chain Reaction", "type": 1 }, { "tag": "morphogenesis", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "PXB54AFM", "version": 52, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/PXB54AFM", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/PXB54AFM", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Fang and Eglen", "parsedDate": "2017-06", "numChildren": 2 }, "data": { "key": "PXB54AFM", "version": 52, "itemType": "journalArticle", "title": "Three-Dimensional Cell Cultures in Drug Discovery and Development", "creators": [ { "creatorType": "author", "firstName": "Ye", "lastName": "Fang" }, { "creatorType": "author", "firstName": "Richard M.", "lastName": "Eglen" } ], "abstractNote": "The past decades have witnessed significant efforts toward the development of three-dimensional (3D) cell cultures as systems that better mimic in vivo physiology. Today, 3D cell cultures are emerging, not only as a new tool in early drug discovery but also as potential therapeutics to treat disease. In this review, we assess leading 3D cell culture technologies and their impact on drug discovery, including spheroids, organoids, scaffolds, hydrogels, organs-on-chips, and 3D bioprinting. We also discuss the implementation of these technologies in compound identification, screening, and development, ranging from disease modeling to assessment of efficacy and safety profiles.", "publicationTitle": "Slas Discovery", "publisher": "", "place": "", "date": "2017-6", "volume": "22", "issue": "5", "section": "", "partNumber": "", "partTitle": "", "pages": "456-472", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "SLAS Discov", "DOI": "10.1177/1087057117696795", "citationKey": "", "url": "http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5448717/", "accessDate": "", "PMID": "28520521", "PMCID": "PMC5448717", "ISSN": "2472-5552", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "3.341 (Q2)", "callNumber": "4", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "3D bioprinting", "type": 1 }, { "tag": "3D cell culture", "type": 1 }, { "tag": "Organoids", "type": 1 }, { "tag": "disease models", "type": 1 }, { "tag": "efficacy", "type": 1 }, { "tag": "multicellular spheroid", "type": 1 }, { "tag": "organs-on-chips", "type": 1 }, { "tag": "safety", "type": 1 }, { "tag": "screening", "type": 1 }, { "tag": "toxicity", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "AS6S3USR", "version": 52, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/AS6S3USR", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/AS6S3USR", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Ranga et al.", "parsedDate": "2016", "numChildren": 2 }, "data": { "key": "AS6S3USR", "version": 52, "itemType": "journalArticle", "title": "Neural tube morphogenesis in synthetic 3D microenvironments", "creators": [ { "creatorType": "author", "firstName": "Adrian", "lastName": "Ranga" }, { "creatorType": "author", "firstName": "Mehmet", "lastName": "Girgin" }, { "creatorType": "author", "firstName": "Andrea", "lastName": "Meinhardt" }, { "creatorType": "author", "firstName": "Dominic", "lastName": "Eberle" }, { "creatorType": "author", "firstName": "Massimiliano", "lastName": "Caiazzo" }, { "creatorType": "author", "firstName": "Elly M.", "lastName": "Tanaka" }, { "creatorType": "author", "firstName": "Matthias P.", "lastName": "Lutolf" } ], "abstractNote": "Three-dimensional organoid constructs serve as increasingly widespread in vitro models for development and disease modeling. Current approaches to recreate morphogenetic processes in vitro rely on poorly controllable and ill-defined matrices, thereby largely overlooking the contribution of biochemical and biophysical extracellular matrix (ECM) factors in promoting multicellular growth and reorganization. Here, we show how defined synthetic matrices can be used to explore the role of the ECM in the development of complex 3D neuroepithelial cysts that recapitulate key steps in early neurogenesis. We demonstrate how key ECM parameters are involved in specifying cytoskeleton-mediated symmetry-breaking events that ultimately lead to neural tube-like patterning along the dorsal-ventral (DV) axis. Such synthetic materials serve as valuable tools for studying the discrete action of extrinsic factors in organogenesis, and allow for the discovery of relationships between cytoskeletal mechanobiology and morphogenesis.", "publicationTitle": "Proceedings of the National Academy of Sciences of the United States of America", "publisher": "", "place": "", "date": "11 01, 2016", "volume": "113", "issue": "44", "section": "", "partNumber": "", "partTitle": "", "pages": "E6831-E6839", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Proc. Natl. Acad. Sci. U.S.A.", "DOI": "10.1073/pnas.1603529113", "citationKey": "", "url": "", "accessDate": "", "PMID": "27742791", "PMCID": "PMC5098636", "ISSN": "1091-6490", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "12.779 (Q1)", "callNumber": "1", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Embryonic Stem Cell", "type": 1 }, { "tag": "Extracellular matrix", "type": 1 }, { "tag": "development", "type": 1 }, { "tag": "neural tube", "type": 1 }, { "tag": "organoid", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "S8HBIB6E", "version": 52, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/S8HBIB6E", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/S8HBIB6E", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Girda et al.", "parsedDate": "2017-07-05", "numChildren": 1 }, "data": { "key": "S8HBIB6E", "version": 52, "itemType": "journalArticle", "title": "The Use of Endometrial Cancer Patient-Derived Organoid Culture for Drug Sensitivity Testing Is Feasible", "creators": [ { "creatorType": "author", "firstName": "Eugenia", "lastName": "Girda" }, { "creatorType": "author", "firstName": "Eric C.", "lastName": "Huang" }, { "creatorType": "author", "firstName": "Gary S.", "lastName": "Leiserowitz" }, { "creatorType": "author", "firstName": "Lloyd H.", "lastName": "Smith" } ], "abstractNote": "OBJECTIVE: Patient-derived organoids (PDOs), used in multiple tumor types, have allowed evaluation of tumor characteristics from individual patients. This study aimed to assess the feasibility of applying PDO in vitro culture for endocrine-based and drug sensitivity testing in endometrial cancer.\nMETHODS: Endometrial cancer cells were enzymatically dissociated from tumors retrieved from fresh hysterectomy specimens and cultured within basement membrane extract in serum-free medium. An organoid growth assay was developed to assess the inhibitory effects of a variety of drugs including endocrine treatments. Organoid cultures were also prepared for histological and immunohistochemical comparison to the tumors of origin.\nRESULTS: Fifteen endometrial cancer specimens were successfully cultured as PDOs. Small spherical structures formed within 24 hours, and many continued to grow to larger, denser organoids, providing the basis for an organoid growth assay. The STAT3 transcription factor inhibitor, BBI608 (Napabucasin), strongly inhibited growth in almost all PDO cultures, suggesting that stemness programing is involved in organoid formation and/or growth. Inhibition by different growth factor receptor tyrosine kinase inhibitors was observed in several PDO specimens. Four cultures were inhibited by fulvestrant, implying the importance of estrogen-receptor signaling in some PDO cultures. Organoids closely resembled their tumors of origin in both histomorphology and immunohistochemical expression.\nCONCLUSIONS: The use of endometrial cancer PDO cultures for development of drug sensitivity testing for individual patient tumors is feasible. The potential value of the PDO model for clinical decision making will require clinical trial evaluation.This is an open-access article distributed under the terms of the Creative Commons Attribution-Non Commercial-No DerivativesLicense 4.0 (CCBY-NC-ND), where it is permissible to download and share thework provided it is properly cited. Thework cannot be changed in anyway or used commerciallywithout permission from the journal.", "publicationTitle": "International Journal of Gynecological Cancer: Official Journal of the International Gynecological Cancer Society", "publisher": "", "place": "", "date": "Jul 05, 2017", "volume": "", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Int. J. Gynecol. Cancer", "DOI": "10.1097/IGC.0000000000001061", "citationKey": "", "url": "", "accessDate": "", "PMID": "28683005", "PMCID": "", "ISSN": "1525-1438", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "PubMed", "callNumber": "", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "28CGF568", "version": 52, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/28CGF568", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/28CGF568", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Bartucci et al.", "parsedDate": "2016", "numChildren": 1 }, "data": { "key": "28CGF568", "version": 52, "itemType": "journalArticle", "title": "Personalized Medicine Approaches in Prostate Cancer Employing Patient Derived 3D Organoids and Humanized Mice", "creators": [ { "creatorType": "author", "firstName": "Monica", "lastName": "Bartucci" }, { "creatorType": "author", "firstName": "Anna C.", "lastName": "Ferrari" }, { "creatorType": "author", "firstName": "Isaac Yi", "lastName": "Kim" }, { "creatorType": "author", "firstName": "Alexander", "lastName": "Ploss" }, { "creatorType": "author", "firstName": "Martin", "lastName": "Yarmush" }, { "creatorType": "author", "firstName": "Hatem E.", "lastName": "Sabaawy" } ], "abstractNote": "Prostate cancer (PCa) is the most common malignancy and the second most common cause of cancer death in Western men. Despite its prevalence, PCa has proven very difficult to propagate in vitro. PCa represents a complex organ-like multicellular structure maintained by the dynamic interaction of tumoral cells with parenchymal stroma, endothelial and immune cells, and components of the extracellular matrix (ECM). The lack of PCa models that recapitulate this intricate system has hampered progress toward understanding disease progression and lackluster therapeutic responses. Tissue slices, monolayer cultures and genetically engineered mouse models (GEMM) fail to mimic the complexities of the PCa microenvironment or reproduce the diverse mechanisms of therapy resistance. Moreover, patient derived xenografts (PDXs) are expensive, time consuming, difficult to establish for prostate cancer, lack immune cell-tumor regulation, and often tumors undergo selective engraftments. Here, we describe an interdisciplinary approach using primary PCa and tumor initiating cells (TICs), three-dimensional (3D) tissue engineering, genetic and morphometric profiling, and humanized mice to generate patient-derived organoids for examining personalized therapeutic responses in vitro and in mice co-engrafted with a human immune system (HIS), employing adaptive T-cell- and chimeric antigen receptor- (CAR) immunotherapy. The development of patient specific therapies targeting the vulnerabilities of cancer, when combined with antiproliferative and immunotherapy approaches could help to achieve the full transformative power of cancer precision medicine.", "publicationTitle": "Frontiers in Cell and Developmental Biology", "publisher": "", "place": "", "date": "2016", "volume": "4", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "64", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Front Cell Dev Biol", "DOI": "10.3389/fcell.2016.00064", "citationKey": "", "url": "", "accessDate": "", "PMID": "27446916", "PMCID": "PMC4917534", "ISSN": "2296-634X", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "6.081 (Q1)", "callNumber": "2", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Organoids", "type": 1 }, { "tag": "Precision medicine", "type": 1 }, { "tag": "precision therapeutics", "type": 1 }, { "tag": "prostate cancer", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "XPTTEQ7F", "version": 52, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/XPTTEQ7F", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/XPTTEQ7F", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Bartfeld and Clevers", "parsedDate": "2017-07", "numChildren": 1 }, "data": { "key": "XPTTEQ7F", "version": 52, "itemType": "journalArticle", "title": "Stem cell-derived organoids and their application for medical research and patient treatment", "creators": [ { "creatorType": "author", "firstName": "Sina", "lastName": "Bartfeld" }, { "creatorType": "author", "firstName": "Hans", "lastName": "Clevers" } ], "abstractNote": "3D culture has allowed the initiation and expansion of organ-like structures, called organoids, from either tissue-resident adult stem cells or pluripotent stem cells. Today, organoids can be grown to resemble a wide variety of organs, exhibiting remarkable similarity to their in vivo counterparts. As successful organoid generation is possible from virtually every patient, organoids hold a great promise for medical research and the development of new treatments. They have already found their way into the clinic, enabling personalized medicine in small patient trials. In this review, we provide an update on current organoid technology and summarize their application in basic research, disease modelling, drug development, personalized treatment and regenerative medicine.", "publicationTitle": "Journal of Molecular Medicine (Berlin, Germany)", "publisher": "", "place": "", "date": "Jul 2017", "volume": "95", "issue": "7", "section": "", "partNumber": "", "partTitle": "", "pages": "729-738", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "J. Mol. Med.", "DOI": "10.1007/s00109-017-1531-7", "citationKey": "", "url": "", "accessDate": "", "PMID": "28391362", "PMCID": "", "ISSN": "1432-1440", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "PubMed", "callNumber": "", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "CFTR", "type": 1 }, { "tag": "Cancer", "type": 1 }, { "tag": "Disease modelling", "type": 1 }, { "tag": "Infectious disease", "type": 1 }, { "tag": "Stem cell", "type": 1 }, { "tag": "organoid", "type": 1 }, { "tag": "personalized medicine", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "PC3QCTCT", "version": 52, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/PC3QCTCT", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/PC3QCTCT", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Fong et al.", "parsedDate": "2017-06", "numChildren": 1 }, "data": { "key": "PC3QCTCT", "version": 52, "itemType": "journalArticle", "title": "3D Culture as a Clinically Relevant Model for Personalized Medicine", "creators": [ { "creatorType": "author", "firstName": "Eliza Li Shan", "lastName": "Fong" }, { "creatorType": "author", "firstName": "Tan Boon", "lastName": "Toh" }, { "creatorType": "author", "firstName": "Hanry", "lastName": "Yu" }, { "creatorType": "author", "firstName": "Edward Kai-Hua", "lastName": "Chow" } ], "abstractNote": "Advances in understanding many of the fundamental mechanisms of cancer progression have led to the development of molecular targeted therapies. While molecular targeted therapeutics continue to improve the outcome for cancer patients, tumor heterogeneity among patients, as well as intratumoral heterogeneity, limits the efficacy of these drugs to specific patient subtypes, as well as contributes to relapse. Thus, there is a need for a more personalized approach toward drug development and diagnosis that takes into account the diversity of cancer patients, as well as the complex milieu of tumor cells within a single patient. Three-dimensional (3D) culture systems paired with patient-derived xenografts or patient-derived organoids may provide a more clinically relevant system to address issues presented by personalized or precision medical approaches. In this review, we cover the current methods available for applying 3D culture systems toward personalized cancer research and drug development, as well as key challenges that must be addressed in order to fully realize the potential of 3D patient-derived culture systems for cancer drug development. Greater implementation of 3D patient-derived culture systems in the cancer research field should accelerate the development of truly personalized medical therapies for cancer patients.", "publicationTitle": "SLAS technology", "publisher": "", "place": "", "date": "Jun 2017", "volume": "22", "issue": "3", "section": "", "partNumber": "", "partTitle": "", "pages": "245-253", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "SLAS Technol", "DOI": "10.1177/2472630317697251", "citationKey": "", "url": "", "accessDate": "", "PMID": "28277923", "PMCID": "", "ISSN": "2472-6311", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "2.813 (Q3)", "callNumber": "4", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "3D", "type": 1 }, { "tag": "high-content screening", "type": 1 }, { "tag": "personalized medicine", "type": 1 }, { "tag": "spheroids", "type": 1 }, { "tag": "tumor models", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "Z379EHD2", "version": 51, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/Z379EHD2", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/Z379EHD2", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Marx", "parsedDate": "2015-06-18", "numChildren": 1 }, "data": { "key": "Z379EHD2", "version": 51, "itemType": "journalArticle", "title": "Tissue engineering: Organs from the lab", "creators": [ { "creatorType": "author", "firstName": "Vivien", "lastName": "Marx" } ], "abstractNote": "", "publicationTitle": "Nature", "publisher": "", "place": "", "date": "Jun 18, 2015", "volume": "522", "issue": "7556", "section": "", "partNumber": "", "partTitle": "", "pages": "373-377", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Nature", "DOI": "10.1038/522373a", "citationKey": "", "url": "", "accessDate": "", "PMID": "26085275", "PMCID": "", "ISSN": "1476-4687", "archive": "", "archiveLocation": "", "shortTitle": "Tissue engineering", "language": "en", "libraryCatalog": "69.504 (Q1)", "callNumber": "1", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Animals", "type": 1 }, { "tag": "Bioartificial Organs", "type": 1 }, { "tag": "Biomedical Engineering", "type": 1 }, { "tag": "Humans", "type": 1 }, { "tag": "Organoids", "type": 1 }, { "tag": "Systems Biology", "type": 1 }, { "tag": "tissue engineering", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "8RVAJ96A", "version": 51, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/8RVAJ96A", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/8RVAJ96A", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Dahl-Jensen and Grapin-Botton", "parsedDate": "2017-03-15", "numChildren": 1 }, "data": { "key": "8RVAJ96A", "version": 51, "itemType": "journalArticle", "title": "The physics of organoids: a biophysical approach to understanding organogenesis", "creators": [ { "creatorType": "author", "firstName": "Svend", "lastName": "Dahl-Jensen" }, { "creatorType": "author", "firstName": "Anne", "lastName": "Grapin-Botton" } ], "abstractNote": "Organoids representing a diversity of tissues have recently been created, bridging the gap between cell culture and experiments performed in vivo Being small and amenable to continuous monitoring, they offer the opportunity to scrutinize the dynamics of organ development, including the exciting prospect of observing aspects of human embryo development live. From a physicist's perspective, their ability to self-organize - to differentiate and organize cells in space - calls for the identification of the simple rules that underlie this capacity. Organoids provide tractable conditions to investigate the effects of the growth environment, including its molecular composition and mechanical properties, along with the initial conditions such as cell number and type(s). From a theoretical standpoint, different types of in silico modeling can complement the measurements performed in organoids to understand the role of chemical diffusion, contact signaling, differential cell adhesion and mechanical controls. Here, we discuss what it means to take a biophysical approach to understanding organogenesis in vitro and how we might expect such approaches to develop in the future.", "publicationTitle": "Development (Cambridge, England)", "publisher": "", "place": "", "date": "Mar 15, 2017", "volume": "144", "issue": "6", "section": "", "partNumber": "", "partTitle": "", "pages": "946-951", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Development", "DOI": "10.1242/dev.143693", "citationKey": "", "url": "", "accessDate": "", "PMID": "28292839", "PMCID": "", "ISSN": "1477-9129", "archive": "", "archiveLocation": "", "shortTitle": "The physics of organoids", "language": "en", "libraryCatalog": "PubMed", "callNumber": "", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Modeling", "type": 1 }, { "tag": "Organogenesis", "type": 1 }, { "tag": "Organoids", "type": 1 }, { "tag": "Stem cells", "type": 1 }, { "tag": "biophysics", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "7H4BIPP5", "version": 51, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/7H4BIPP5", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/7H4BIPP5", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Simunovic and Brivanlou", "parsedDate": "2017-03-15", "numChildren": 1 }, "data": { "key": "7H4BIPP5", "version": 51, "itemType": "journalArticle", "title": "Embryoids, organoids and gastruloids: new approaches to understanding embryogenesis", "creators": [ { "creatorType": "author", "firstName": "Mijo", "lastName": "Simunovic" }, { "creatorType": "author", "firstName": "Ali H.", "lastName": "Brivanlou" } ], "abstractNote": "Cells have an intrinsic ability to self-assemble and self-organize into complex and functional tissues and organs. By taking advantage of this ability, embryoids, organoids and gastruloids have recently been generated in vitro, providing a unique opportunity to explore complex embryological events in a detailed and highly quantitative manner. Here, we examine how such approaches are being used to answer fundamental questions in embryology, such as how cells self-organize and assemble, how the embryo breaks symmetry, and what controls timing and size in development. We also highlight how further improvements to these exciting technologies, based on the development of quantitative platforms to precisely follow and measure subcellular and molecular events, are paving the way for a more complete understanding of the complex events that help build the human embryo.", "publicationTitle": "Development (Cambridge, England)", "publisher": "", "place": "", "date": "Mar 15, 2017", "volume": "144", "issue": "6", "section": "", "partNumber": "", "partTitle": "", "pages": "976-985", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Development", "DOI": "10.1242/dev.143529", "citationKey": "", "url": "", "accessDate": "", "PMID": "28292844", "PMCID": "PMC5358114", "ISSN": "1477-9129", "archive": "", "archiveLocation": "", "shortTitle": "Embryoids, organoids and gastruloids", "language": "en", "libraryCatalog": "PubMed", "callNumber": "", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Early development", "type": 1 }, { "tag": "Patterning", "type": 1 }, { "tag": "Self-assembly", "type": 1 }, { "tag": "Symmetry breaking", "type": 1 }, { "tag": "Tissue mechanics", "type": 1 }, { "tag": "self-organization", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "E3FFXKQT", "version": 51, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/E3FFXKQT", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/E3FFXKQT", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Wan", "parsedDate": "2016-09", "numChildren": 1 }, "data": { "key": "E3FFXKQT", "version": 51, "itemType": "journalArticle", "title": "Recapitulating Cell-Cell Interactions for Organoid Construction - Are Biomaterials Dispensable?", "creators": [ { "creatorType": "author", "firstName": "Andrew C. A.", "lastName": "Wan" } ], "abstractNote": "Cells are spatially patterned in 3D space to allow an intricately orchestrated exchange of signals that regulate their migration, proliferation, differentiation, and death. In recent years cellular self-assembly has emerged as an attractive method to achieve the complexity of organ structures, where the essential cell types co-cultured under carefully defined conditions in vitro have been shown to give rise to organoids such as the optic cup, brain, intestine, liver, and kidney. In view of these developments, what would the revised role of biomaterial-based technologies be, or do they retain any role at all? This Opinion article maintains that biomaterials will not only retain their value but will also synergize with organoid technologies in recapitulating cell-cell interactions.", "publicationTitle": "Trends in Biotechnology", "publisher": "", "place": "", "date": "Sep 2016", "volume": "34", "issue": "9", "section": "", "partNumber": "", "partTitle": "", "pages": "711-721", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Trends Biotechnol.", "DOI": "10.1016/j.tibtech.2016.02.015", "citationKey": "", "url": "", "accessDate": "", "PMID": "27012157", "PMCID": "", "ISSN": "1879-3096", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "21.942 (Q1)", "callNumber": "1", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Biomaterials", "type": 1 }, { "tag": "Organoids", "type": 1 }, { "tag": "cell–cell interactions", "type": 1 }, { "tag": "tissue engineering", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "742M4SSV", "version": 51, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/742M4SSV", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/742M4SSV", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "McCauley and Wells", "parsedDate": "2017-03-15", "numChildren": 1 }, "data": { "key": "742M4SSV", "version": 51, "itemType": "journalArticle", "title": "Pluripotent stem cell-derived organoids: using principles of developmental biology to grow human tissues in a dish", "creators": [ { "creatorType": "author", "firstName": "Heather A.", "lastName": "McCauley" }, { "creatorType": "author", "firstName": "James M.", "lastName": "Wells" } ], "abstractNote": "Pluripotent stem cell (PSC)-derived organoids are miniature, three-dimensional human tissues generated by the application of developmental biological principles to PSCs in vitro The approach to generate organoids uses a combination of directed differentiation, morphogenetic processes, and the intrinsically driven self-assembly of cells that mimics organogenesis in the developing embryo. The resulting organoids have remarkable cell type complexity, architecture and function similar to their in vivo counterparts. In the past five years, human PSC-derived organoids with components of all three germ layers have been generated, resulting in the establishment of a new human model system. Here, and in the accompanying poster, we provide an overview of how principles of developmental biology have been essential for generating human organoids in vitro, and how organoids are now being used as a primary research tool to investigate human developmental biology.", "publicationTitle": "Development (Cambridge, England)", "publisher": "", "place": "", "date": "Mar 15, 2017", "volume": "144", "issue": "6", "section": "", "partNumber": "", "partTitle": "", "pages": "958-962", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Development", "DOI": "10.1242/dev.140731", "citationKey": "", "url": "", "accessDate": "", "PMID": "28292841", "PMCID": "PMC5358106", "ISSN": "1477-9129", "archive": "", "archiveLocation": "", "shortTitle": "Pluripotent stem cell-derived organoids", "language": "en", "libraryCatalog": "PubMed", "callNumber": "", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Directed differentiation", "type": 1 }, { "tag": "Human development", "type": 1 }, { "tag": "Organoids", "type": 1 }, { "tag": "Patterning", "type": 1 }, { "tag": "Pluripotent Stem Cells", "type": 1 }, { "tag": "morphogenesis", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "27Q8DISC", "version": 51, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/27Q8DISC", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/27Q8DISC", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Li et al.", "parsedDate": "2014-06", "numChildren": 2 }, "data": { "key": "27Q8DISC", "version": 51, "itemType": "journalArticle", "title": "In vitro organogenesis from pluripotent stem cells", "creators": [ { "creatorType": "author", "firstName": "Yan", "lastName": "Li" }, { "creatorType": "author", "firstName": "Chunhui", "lastName": "Xu" }, { "creatorType": "author", "firstName": "Teng", "lastName": "Ma" } ], "abstractNote": "Pluripotent stem cells (PSCs) have the ability to spontaneously generate structured tissues in vitro reminiscent of embryonic tissue development. Recently, complex organoids such as cortical tissues, cerebral brain organoids, optical cups, intestinal tissues, and liver buds have been generated from PSCs derived from healthy individuals and patients with genetic diseases, providing powerful tools to understand morphogenesis and disease pathology. This article highlights recent advances in the state-of-art generation of organoids from PSCs, possible signaling pathways and mechanisms involved in organogenesis, and the understanding of extracellular microenvironment. Challenges involved in the organoid generation such as increasing organoid size, enhancing the tissue complexity, and improving functional maturation are also discussed.", "publicationTitle": "Organogenesis", "publisher": "", "place": "", "date": "2014 Apr-Jun", "volume": "10", "issue": "2", "section": "", "partNumber": "", "partTitle": "", "pages": "159-163", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Organogenesis", "DOI": "10.4161/org.28918", "citationKey": "", "url": "", "accessDate": "", "PMID": "24762764", "PMCID": "PMC4154948", "ISSN": "1555-8592", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "2.316 (Q3)", "callNumber": "4", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "3-D", "type": 1 }, { "tag": "Animals", "type": 1 }, { "tag": "Cell Aggregation", "type": 1 }, { "tag": "Extracellular matrix", "type": 1 }, { "tag": "Humans", "type": 1 }, { "tag": "In Vitro Techniques", "type": 1 }, { "tag": "Organogenesis", "type": 1 }, { "tag": "Organoids", "type": 1 }, { "tag": "Pluripotent Stem Cells", "type": 1 }, { "tag": "organoid", "type": 1 }, { "tag": "pluripotent stem cell", "type": 1 }, { "tag": "tissue development", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "6WP95K2B", "version": 51, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/6WP95K2B", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/6WP95K2B", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Kuratnik and Giardina", "parsedDate": "2013-06-15", "numChildren": 1 }, "data": { "key": "6WP95K2B", "version": 51, "itemType": "journalArticle", "title": "Intestinal organoids as tissue surrogates for toxicological and pharmacological studies", "creators": [ { "creatorType": "author", "firstName": "Anton", "lastName": "Kuratnik" }, { "creatorType": "author", "firstName": "Charles", "lastName": "Giardina" } ], "abstractNote": "Recently developed cell culture protocols have allowed for the derivation of multi-cellular structures dubbed intestinal \"organoids\" from embryonic stem cells (ESCs), induced pluripotent stem cells (IPSCs), and adult intestinal stem cells (ISCs). These structures resemble in vivo intestinal crypts, both in structure and developmental processes, and can be grown quickly and in relatively large quantities. Although much research has focused on developing intestinal organoids for tissue repair, more immediate applications include high-throughput screening for agents that target intestinal epithelium. Here we describe current methods for deriving mouse and human intestinal organoids and discuss some applications aimed at developing novel therapies or preventive agents for diseases of the lower GI tract such as inflammatory bowel diseases and colorectal cancer.", "publicationTitle": "Biochemical Pharmacology", "publisher": "", "place": "", "date": "Jun 15, 2013", "volume": "85", "issue": "12", "section": "", "partNumber": "", "partTitle": "", "pages": "1721-1726", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Biochem. Pharmacol.", "DOI": "10.1016/j.bcp.2013.04.016", "citationKey": "", "url": "", "accessDate": "", "PMID": "23623789", "PMCID": "", "ISSN": "1873-2968", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "6.1 (Q1)", "callNumber": "2", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Animals", "type": 1 }, { "tag": "Drug-Related Side Effects and Adverse Reactions", "type": 1 }, { "tag": "Gastrointestinal Diseases", "type": 1 }, { "tag": "Humans", "type": 1 }, { "tag": "Induced Pluripotent Stem Cells", "type": 1 }, { "tag": "Intestinal Mucosa", "type": 1 }, { "tag": "Organoids", "type": 1 }, { "tag": "Stem Cell Transplantation", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "J536MS9P", "version": 51, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/J536MS9P", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/J536MS9P", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Astashkina and Grainger", "parsedDate": "2014-04", "numChildren": 1 }, "data": { "key": "J536MS9P", "version": 51, "itemType": "journalArticle", "title": "Critical analysis of 3-D organoid in vitro cell culture models for high-throughput drug candidate toxicity assessments", "creators": [ { "creatorType": "author", "firstName": "Anna", "lastName": "Astashkina" }, { "creatorType": "author", "firstName": "David W.", "lastName": "Grainger" } ], "abstractNote": "Drug failure due to toxicity indicators remains among the primary reasons for staggering drug attrition rates during clinical studies and post-marketing surveillance. Broader validation and use of next-generation 3-D improved cell culture models are expected to improve predictive power and effectiveness of drug toxicological predictions. However, after decades of promising research significant gaps remain in our collective ability to extract quality human toxicity information from in vitro data using 3-D cell and tissue models. Issues, challenges and future directions for the field to improve drug assay predictive power and reliability of 3-D models are reviewed.", "publicationTitle": "Advanced Drug Delivery Reviews", "publisher": "", "place": "", "date": "Apr 2014", "volume": "69-70", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "1-18", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Adv. Drug Deliv. Rev.", "DOI": "10.1016/j.addr.2014.02.008", "citationKey": "", "url": "", "accessDate": "", "PMID": "24613390", "PMCID": "", "ISSN": "1872-8294", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "17.873 (Q1)", "callNumber": "1", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "3-D organoid culture", "type": 1 }, { "tag": "Animals", "type": 1 }, { "tag": "Cell Culture Techniques", "type": 1 }, { "tag": "Cell culture models", "type": 1 }, { "tag": "Cellular Microenvironment", "type": 1 }, { "tag": "Drug development", "type": 1 }, { "tag": "Drug-Related Side Effects and Adverse Reactions", "type": 1 }, { "tag": "HTS screens", "type": 1 }, { "tag": "High-Throughput Screening Assays", "type": 1 }, { "tag": "Humans", "type": 1 }, { "tag": "Nanotoxicity", "type": 1 }, { "tag": "Organoids", "type": 1 }, { "tag": "Pharmaceutical Preparations", "type": 1 }, { "tag": "Reasons for failure", "type": 1 }, { "tag": "Toxicity Tests", "type": 1 }, { "tag": "toxicity", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "8CWZKU9X", "version": 51, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/8CWZKU9X", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/8CWZKU9X", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Astashkina et al.", "parsedDate": "2012-06", "numChildren": 1 }, "data": { "key": "8CWZKU9X", "version": 51, "itemType": "journalArticle", "title": "A 3-D organoid kidney culture model engineered for high-throughput nephrotoxicity assays", "creators": [ { "creatorType": "author", "firstName": "Anna I.", "lastName": "Astashkina" }, { "creatorType": "author", "firstName": "Brenda K.", "lastName": "Mann" }, { "creatorType": "author", "firstName": "Glenn D.", "lastName": "Prestwich" }, { "creatorType": "author", "firstName": "David W.", "lastName": "Grainger" } ], "abstractNote": "Cell-cell and cell-matrix interactions control cell phenotypes and functions in vivo. Maintaining these interactions in vitro is essential to both produce and retain cultured cell fidelity to normal phenotype and function in the context of drug efficacy and toxicity screening. Two-dimensional (2-D) cultures on culture plastics rarely recapitulate any of these desired conditions. Three dimensional (3-D) culture systems provide a critical junction between traditional, yet often irrelevant, in vitro cell cultures and more accurate, yet costly, in vivo models. This study describes development of an organoid-derived 3-D culture of kidney proximal tubules (PTs) that maintains native cellular interactions in tissue context, regulating phenotypic stability of primary cells in vitro for up to 6 weeks. Furthermore, unlike immortalized cells on plastic, these 3-D organoid kidney cultures provide a more physiologically-relevant response to nephrotoxic agent exposure, with production of toxicity biomarkers found in vivo. This biomimetic primary kidney model has broad applicability to high-throughput drug and biomarker nephrotoxicity screening, as well as more mechanistic drug toxicology, pharmacology, and metabolism studies.", "publicationTitle": "Biomaterials", "publisher": "", "place": "", "date": "Jun 2012", "volume": "33", "issue": "18", "section": "", "partNumber": "", "partTitle": "", "pages": "4700-4711", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Biomaterials", "DOI": "10.1016/j.biomaterials.2012.02.063", "citationKey": "", "url": "", "accessDate": "", "PMID": "22444643", "PMCID": "", "ISSN": "1878-5905", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "15.304 (Q1)", "callNumber": "1", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Animals", "type": 1 }, { "tag": "Cell Aging", "type": 1 }, { "tag": "Cell Culture Techniques", "type": 1 }, { "tag": "Cell Differentiation", "type": 1 }, { "tag": "Cell Survival", "type": 1 }, { "tag": "Cells, Cultured", "type": 1 }, { "tag": "Gluconeogenesis", "type": 1 }, { "tag": "Kidney", "type": 1 }, { "tag": "Kidney Tubules, Proximal", "type": 1 }, { "tag": "Male", "type": 1 }, { "tag": "Mice", "type": 1 }, { "tag": "Mice, Inbred C57BL", "type": 1 }, { "tag": "Organoids", "type": 1 }, { "tag": "Toxicity Tests", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "9B3QF7HW", "version": 51, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/9B3QF7HW", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/9B3QF7HW", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Hartley and Brennand", "parsedDate": "2017-06", "numChildren": 1 }, "data": { "key": "9B3QF7HW", "version": 51, "itemType": "journalArticle", "title": "Neural organoids for disease phenotyping, drug screening and developmental biology studies", "creators": [ { "creatorType": "author", "firstName": "Brigham J.", "lastName": "Hartley" }, { "creatorType": "author", "firstName": "Kristen J.", "lastName": "Brennand" } ], "abstractNote": "Human induced pluripotent stem cells (hiPSCs) can theoretically yield limitless supplies of cells fated to any cell type that comprise the human organism, making them a new tool by which to potentially overcome caveats in current biomedical research. In vitro derivation of central nervous system (CNS) cell types has the potential to provide material for drug discovery and validation, safety and toxicity assays, cell replacement therapy and the elucidation of previously unknown disease mechanisms. However, current two-dimensional (2D) CNS differentiation protocols do not faithfully recapitulate the spatial organization of heterogeneous tissue, nor the cell-cell interactions, cell-extracellular matrix interactions, or specific physiological functions generated within complex tissue such as the brain. In an effort to overcome 2D protocol limitations, there have been advancements in deriving highly complicated 3D neural organoid structures. Herein we provide a synopsis of the derivation and application of neural organoids and discuss recent advancements and remaining challenges on the full potential of this novel technological platform.", "publicationTitle": "Neurochemistry International", "publisher": "", "place": "", "date": "Jun 2017", "volume": "106", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "85-93", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Neurochem. Int.", "DOI": "10.1016/j.neuint.2016.10.004", "citationKey": "", "url": "", "accessDate": "", "PMID": "27744003", "PMCID": "PMC5389930", "ISSN": "1872-9754", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "4.297 (Q2)", "callNumber": "3", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Cerebral organoids", "type": 1 }, { "tag": "Disease Modeling", "type": 1 }, { "tag": "Drug screening", "type": 1 }, { "tag": "Embryonic Stem Cells", "type": 1 }, { "tag": "Human induced pluripotent stem cells", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "FN8JMUJS", "version": 48, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/FN8JMUJS", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/FN8JMUJS", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 8790754, "username": "yhliang0606", "name": "Yongheng Liang", "links": { "alternate": { "href": "https://www.zotero.org/yhliang0606", "type": "text/html" } } }, "numChildren": 0 }, "data": { "key": "FN8JMUJS", "version": 48, "itemType": "webpage", "title": "Multiscale microenvironmental perturbation of pluripotent stem cell fate and self-organization. - PubMed - NCBI", "creators": [], "abstractNote": "", "websiteTitle": "", "websiteType": "", "date": "", "publisher": "", "place": "", "DOI": "", "citationKey": "", "url": "https://www.ncbi.nlm.nih.gov/pubmed/28303935", "accessDate": "2017-07-21T14:14:19Z", "shortTitle": "", "language": "en", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:36Z" } }, { "key": "CJJ7MNZE", "version": 55, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/CJJ7MNZE", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/CJJ7MNZE", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Russell et al.", "parsedDate": "2017-06-29", "numChildren": 1 }, "data": { "key": "CJJ7MNZE", "version": 55, "itemType": "journalArticle", "title": "Non-model model organisms", "creators": [ { "creatorType": "author", "firstName": "James J.", "lastName": "Russell" }, { "creatorType": "author", "firstName": "Julie A.", "lastName": "Theriot" }, { "creatorType": "author", "firstName": "Pranidhi", "lastName": "Sood" }, { "creatorType": "author", "firstName": "Wallace F.", "lastName": "Marshall" }, { "creatorType": "author", "firstName": "Laura F.", "lastName": "Landweber" }, { "creatorType": "author", "firstName": "Lillian", "lastName": "Fritz-Laylin" }, { "creatorType": "author", "firstName": "Jessica K.", "lastName": "Polka" }, { "creatorType": "author", "firstName": "Snezhana", "lastName": "Oliferenko" }, { "creatorType": "author", "firstName": "Therese", "lastName": "Gerbich" }, { "creatorType": "author", "firstName": "Amy", "lastName": "Gladfelter" }, { "creatorType": "author", "firstName": "James", "lastName": "Umen" }, { "creatorType": "author", "firstName": "Magdalena", "lastName": "Bezanilla" }, { "creatorType": "author", "firstName": "Madeline A.", "lastName": "Lancaster" }, { "creatorType": "author", "firstName": "Shuonan", "lastName": "He" }, { "creatorType": "author", "firstName": "Matthew C.", "lastName": "Gibson" }, { "creatorType": "author", "firstName": "Bob", "lastName": "Goldstein" }, { "creatorType": "author", "firstName": "Elly M.", "lastName": "Tanaka" }, { "creatorType": "author", "firstName": "Chi-Kuo", "lastName": "Hu" }, { "creatorType": "author", "firstName": "Anne", "lastName": "Brunet" } ], "abstractNote": "Model organisms are widely used in research as accessible and convenient systems to study a particular area or question in biology. Traditionally only a handful of organisms have been widely studied, but modern research tools are enabling researchers to extend the set of model organisms to include less-studied and more unusual systems. This Forum highlights a range of 'non-model model organisms' as emerging systems for tackling questions across the whole spectrum of biology (and beyond), the opportunities and challenges, and the outlook for the future.", "publicationTitle": "BMC Biology", "publisher": "", "place": "", "date": "2017-6-29", "volume": "15", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "BMC Biol", "DOI": "10.1186/s12915-017-0391-5", "citationKey": "", "url": "http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5492503/", "accessDate": "", "PMID": "28662661", "PMCID": "PMC5492503", "ISSN": "1741-7007", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "7.364 (Q1)", "callNumber": "2", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:35Z" } }, { "key": "UBRM5S9A", "version": 55, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/UBRM5S9A", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/UBRM5S9A", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Choi et al.", "parsedDate": "2016-11-14", "numChildren": 1 }, "data": { "key": "UBRM5S9A", "version": 55, "itemType": "journalArticle", "title": "Modeling of Autism Using Organoid Technology", "creators": [ { "creatorType": "author", "firstName": "Hwan", "lastName": "Choi" }, { "creatorType": "author", "firstName": "Juhyun", "lastName": "Song" }, { "creatorType": "author", "firstName": "Guiyeon", "lastName": "Park" }, { "creatorType": "author", "firstName": "Jongpil", "lastName": "Kim" } ], "abstractNote": "Autism is a neurodevelopmental disease caused by multiple mutations during development. However, a suitable disease model to study the molecular pathway of disease onset and progression is not available. Although many studies have used human stem cells such as induced pluripotent stem cells and embryonic stem cells to investigate the disease pathogenesis, these stem cell techniques are limited in their abilities to study the pathology and mechanism of pathogenesis of neurodevelopmental diseases such as autism. Therefore, researchers are focusing on the strengths of three-dimensional (3D) structures mimicking organs, organoids, for modeling autism. In this review, we highlight the advantages of 3D organoid systems to investigate the mechanisms of the pathogenesis of autism. Further, because the onset of autism is determined by genetic background, we suggest the application of the clustered regularly interspersed short palindromic repeat-associated protein 9 (CRISPR/Cas9) technique for genome editing in 3D organoid systems to study mutations that cause autism. We propose that 3D organoid systems combined with the CRISPR/Cas9 technique may advance autism research.", "publicationTitle": "Molecular Neurobiology", "publisher": "", "place": "", "date": "Nov 14, 2016", "volume": "", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Mol. Neurobiol.", "DOI": "10.1007/s12035-016-0274-8", "citationKey": "", "url": "", "accessDate": "", "PMID": "27844287", "PMCID": "", "ISSN": "1559-1182", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "5.682 (Q1)", "callNumber": "2", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Autism", "type": 1 }, { "tag": "Clustered regularly interspersed short palindromic repeat-associated protein 9 (CRISPR/Cas9)", "type": 1 }, { "tag": "Induced pluripotent stem cells (iPSCs)", "type": 1 }, { "tag": "Organoids", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:35Z" } }, { "key": "EWPM6F3R", "version": 55, "library": { "type": "group", "id": 364508, "name": "PNAS / LabChip / Nature Paper", "links": { "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/364508/items/EWPM6F3R", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/pnas__labchip__nature_paper/items/EWPM6F3R", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1265372, "username": "cnarciso", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/cnarciso", "type": "text/html" } } }, "lastModifiedByUser": { "id": 1408822, "username": "jzartmanatnd.edu", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/jzartmanatnd.edu", "type": "text/html" } } }, "creatorSummary": "Schwarz et al.", "parsedDate": "2015-12", "numChildren": 1 }, "data": { "key": "EWPM6F3R", "version": 55, "itemType": "journalArticle", "title": "Value of Organoids from Comparative Epithelia Models", "creators": [ { "creatorType": "author", "firstName": "Julia S.", "lastName": "Schwarz" }, { "creatorType": "author", "firstName": "Hugo R.", "lastName": "de Jonge" }, { "creatorType": "author", "firstName": "John N.", "lastName": "Forrest" } ], "abstractNote": "Organoids have tremendous therapeutic potential. They were recently defined as a collection of organ-specific cell types, which self-organize through cell-sorting, develop from stem cells, and perform an organ specific function. The ability to study organoid development and growth in culture and manipulate their genetic makeup makes them particularly suitable for studying development, disease, and drug efficacy. Organoids show great promise in personalized medicine. From a single patient biopsy, investigators can make hundreds of organoids with the genetic landscape of the patient of origin. This genetic similarity makes organoids an ideal system in which to test drug efficacy. While many investigators assume human organoids are the ultimate model system, we believe that the generation of epithelial organoids of comparative model organisms has great potential. Many key transport discoveries were made using marine organisms. In this paper, we describe how deriving organoids from the spiny dogfish shark, zebrafish, and killifish can contribute to the fields of comparative biology and disease modeling with future prospects for personalized medicine.", "publicationTitle": "The Yale Journal of Biology and Medicine", "publisher": "", "place": "", "date": "Dec 2015", "volume": "88", "issue": "4", "section": "", "partNumber": "", "partTitle": "", "pages": "367-374", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Yale J Biol Med", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "26604860", "PMCID": "PMC4654185", "ISSN": "1551-4056", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "3.434", "callNumber": "3", "rights": "", "extra": "", "tags": [ { "tag": "/unread", "type": 1 }, { "tag": "Animals", "type": 1 }, { "tag": "Danio rerio", "type": 1 }, { "tag": "Epithelium", "type": 1 }, { "tag": "Fundulidae", "type": 1 }, { "tag": "Fundulus heteroclitus", "type": 1 }, { "tag": "Humans", "type": 1 }, { "tag": "Models, Biological", "type": 1 }, { "tag": "Organoids", "type": 1 }, { "tag": "Precision medicine", "type": 1 }, { "tag": "Squalus acanthias", "type": 1 }, { "tag": "Zebrafish", "type": 1 }, { "tag": "cystic fibrosis", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2017-07-21T15:16:56Z", "dateModified": "2023-07-20T04:17:35Z" } } ]